Concepedia

Cerebellar Transcriptome Profiles of ATXN1 Transgenic Mice Reveal SCA1 Disease Progression and Protection Pathways

Melissa Ingram, Emily A.L. Wozniak, Lisa Duvick, Rendong Yang, Paul Bergmann, Robert P. Carson, Brennon O’Callaghan, Huda Y. Zoghbi, Christine Henzler, Harry T. Orr

Neuron · 2016 · 108 citations · 54 references

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54

Trimmomatic: a flexible trimmer for Illumina sequence data

Anthony Bolger, Marc Lohse, Björn Usadel · Bioinformatics · 2014 · 69.7K citations · Full text

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Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks

Paul Shannon, Andrew Markiel, Owen Ozier et al. · Genome Research · 2003 · 54.3K citations · Full text

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WGCNA: an R package for weighted correlation network analysis

Peter Langfelder, Steve Horvath · BMC Bioinformatics · 2008 · 29.1K citations · Full text

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Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

Cole Trapnell, Brian A. Williams, Geo Pertea et al. · Nature Biotechnology · 2010 · 16.5K citations

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TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

Daehwan Kim, Geo Pertea, Cole Trapnell et al. · Genome biology · 2013 · 13.7K citations · Full text

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